Conformational impact on deformation of DNA TATA-box

TL;DR

This paper presents a detailed theoretical model explaining abnormal DNA TATA-box deformations, emphasizing structural polymorphism and conformational rearrangements beyond standard elastic models.

Contribution

It introduces a new modeling approach that accounts for conformational polymorphism and specific sequence effects in DNA TATA-box deformation analysis.

Findings

DNA TATA-box can undergo significant deformations due to structural polymorphism.

The model explains abnormal deformations not captured by standard elastic models.

Conformational rearrangements of sugar rings influence DNA flexibility.

Abstract

The theoretical study of deformability of special sequence of DNA double helix TATA-box is presentated. The paper elaborates on the mechanisms of abnormal deformation of DNA TATA-box double helix that cannot be explained using the standard mechanical model of polymer molecules (WLC) and needs more detailed modeling. Analyzing of DNA TATA-box deformation it is shown the molucule can undergo significant deformations due to its property of the structural polymorphism, that is, possibility of the double helix fragment to exist in more then one conformations. In addition to elastic components (bending, twisting), the presented model includes the following deformation features: possibility of conformation rearrangement of the shapes of the sugar rings, effects of a specific nucleotide sequence and anisotropy, the coupling between components. Presented model allows describe abnormal deformation based on physical special fitures of double helix inner structure.